Query 020383
Match_columns 327
No_of_seqs 80 out of 82
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 09:18:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020383.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020383hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05687 DUF822: Plant protein 100.0 7.7E-63 1.7E-67 425.5 13.7 140 2-145 1-148 (150)
2 PLN02905 beta-amylase 100.0 1.1E-35 2.3E-40 300.4 9.8 93 4-98 78-170 (702)
3 PLN02705 beta-amylase 100.0 9.9E-34 2.1E-38 285.5 9.2 88 5-93 77-164 (681)
4 PF00010 HLH: Helix-loop-helix 56.3 42 0.00092 23.7 5.4 45 13-57 2-49 (55)
5 PF14226 DIOX_N: non-haem diox 46.1 25 0.00055 27.4 3.2 39 21-59 11-49 (116)
6 PF05687 DUF822: Plant protein 45.1 19 0.00041 32.6 2.6 28 93-120 84-111 (150)
7 TIGR03674 fen_arch flap struct 45.0 45 0.00098 32.3 5.4 57 6-62 82-145 (338)
8 PF11914 DUF3432: Domain of un 44.6 48 0.001 28.3 4.8 11 161-171 88-98 (99)
9 KOG0260 RNA polymerase II, lar 41.2 4.3E+02 0.0094 31.6 12.7 12 44-55 1371-1382(1605)
10 PF14111 DUF4283: Domain of un 40.2 16 0.00035 29.6 1.3 34 40-73 110-143 (153)
11 PF00424 REV: REV protein (ant 39.8 36 0.00077 28.6 3.3 26 9-34 32-61 (91)
12 PLN02409 serine--glyoxylate am 38.2 89 0.0019 29.9 6.1 35 40-74 311-350 (401)
13 PF10075 PCI_Csn8: COP9 signal 37.2 29 0.00063 28.8 2.5 23 49-71 111-133 (143)
14 PRK07309 aromatic amino acid a 36.7 73 0.0016 30.1 5.3 30 41-71 326-357 (391)
15 KOG0260 RNA polymerase II, lar 36.5 4.4E+02 0.0096 31.5 11.8 28 28-55 1379-1406(1605)
16 PRK08361 aspartate aminotransf 36.4 70 0.0015 30.0 5.1 57 14-71 292-359 (391)
17 PRK07682 hypothetical protein; 35.7 70 0.0015 29.7 4.9 25 46-71 321-345 (378)
18 KOG0733 Nuclear AAA ATPase (VC 34.1 26 0.00057 38.4 2.1 44 20-63 363-411 (802)
19 PRK12454 carbamate kinase-like 33.1 35 0.00076 33.5 2.6 35 48-82 137-172 (313)
20 PRK05957 aspartate aminotransf 30.9 80 0.0017 29.8 4.5 28 42-70 325-352 (389)
21 cd00083 HLH Helix-loop-helix d 30.9 81 0.0018 21.9 3.5 47 10-56 2-49 (60)
22 PRK05942 aspartate aminotransf 28.6 1.2E+02 0.0025 28.7 5.2 30 41-71 332-361 (394)
23 cd08517 PBP2_NikA_DppA_OppA_li 28.3 77 0.0017 30.1 4.0 20 49-68 313-332 (480)
24 PRK09276 LL-diaminopimelate am 27.9 1.5E+02 0.0033 27.6 5.7 28 42-70 329-356 (385)
25 smart00550 Zalpha Z-DNA-bindin 27.6 1.1E+02 0.0025 22.9 4.0 50 24-75 5-67 (68)
26 COG1487 VapC Predicted nucleic 27.6 1.2E+02 0.0026 24.6 4.5 41 23-67 75-115 (133)
27 PRK08363 alanine aminotransfer 27.5 98 0.0021 29.1 4.5 24 47-71 340-363 (398)
28 TIGR01365 serC_2 phosphoserine 26.7 2E+02 0.0043 28.4 6.5 60 15-75 260-352 (374)
29 cd06451 AGAT_like Alanine-glyo 26.4 1.8E+02 0.0038 26.5 5.8 45 19-64 260-320 (356)
30 cd08513 PBP2_thermophilic_Hb8_ 25.6 1E+02 0.0022 29.5 4.3 21 50-70 310-330 (482)
31 PRK12354 carbamate kinase; Rev 24.2 62 0.0014 31.7 2.6 30 48-77 128-157 (307)
32 PRK07683 aminotransferase A; V 23.7 1.6E+02 0.0035 27.7 5.2 55 16-71 288-352 (387)
33 PRK12495 hypothetical protein; 23.7 1E+02 0.0022 29.6 3.8 55 10-75 5-65 (226)
34 TIGR03538 DapC_gpp succinyldia 23.7 1.1E+02 0.0024 28.8 4.1 24 46-70 334-357 (393)
35 cd06453 SufS_like Cysteine des 23.6 1.6E+02 0.0036 26.9 5.1 45 21-66 278-336 (373)
36 cd08497 PBP2_NikA_DppA_OppA_li 22.9 1E+02 0.0023 30.0 3.8 25 48-72 319-343 (491)
37 PRK07908 hypothetical protein; 22.8 2E+02 0.0042 26.6 5.4 55 14-70 256-316 (349)
38 cd08509 PBP2_TmCBP_oligosaccha 22.8 1.2E+02 0.0026 29.6 4.3 23 49-71 324-346 (509)
39 TIGR03537 DapC succinyldiamino 22.8 1.6E+02 0.0035 27.2 4.9 29 41-71 294-322 (350)
40 PRK07392 threonine-phosphate d 21.6 1.4E+02 0.003 27.8 4.2 24 47-71 306-329 (360)
41 PRK06108 aspartate aminotransf 21.5 1.9E+02 0.0041 26.6 5.1 29 41-70 322-350 (382)
42 PRK12686 carbamate kinase; Rev 20.4 88 0.0019 30.7 2.8 33 50-82 137-170 (312)
43 PRK09411 carbamate kinase; Rev 20.3 87 0.0019 30.8 2.7 28 50-77 131-158 (297)
44 COG4702 Uncharacterized conser 20.0 74 0.0016 29.4 2.0 23 41-63 139-161 (168)
No 1
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=100.00 E-value=7.7e-63 Score=425.51 Aligned_cols=140 Identities=75% Similarity=1.178 Sum_probs=132.2
Q ss_pred CCCCCCCChhhhhhhHHHHHHHHHHHHHHHHhhhhhCCCCCCCcCChHHHHHHHHHHhCceEcCCCccccccCCCCcccc
Q 020383 2 TSGTRMPTWKERDNNKRRERRRRAIAAKIYAGLRMYGNYRLPKHCDNNEVLKALCNEAGWTVEEDGTTYRKGCKPVEYMD 81 (327)
Q Consensus 2 ts~~r~ptw~ErEnnk~RERrRRaIaakI~aGlr~~gny~lp~~~d~n~vl~al~~eagw~ve~dgttyr~g~kp~~~~~ 81 (327)
|++.|+||||||||||+|||||||||+|||+|||+||||+|||||||||||||||+||||+||+|||||||+|||++.++
T Consensus 1 ~~~~r~pt~kErEnnk~RERrRRAIaakIfaGLR~~Gny~Lp~~aD~NeVLkALc~eAGw~Ve~DGTtyr~~~~~~~~~~ 80 (150)
T PF05687_consen 1 GSGGRRPTWKERENNKRRERRRRAIAAKIFAGLRAHGNYKLPKHADNNEVLKALCREAGWTVEPDGTTYRKGCKPPEPME 80 (150)
T ss_pred CCCcccccHhhhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcCCHHHHHHHHHHhCCEEEccCCCeeccCCCCCcccc
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCCCccC--------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCchhHhhhhccCCCC
Q 020383 82 VMGGSASASACSSYQ--------QSPCASYNPSPGSSSFPSPRSSHYTPHANGSADANSLIPWLKNLSSSSS 145 (327)
Q Consensus 82 ~~G~s~~~spcSS~~--------pSp~aSY~~SP~SSSFPSp~~s~~~~~~~~s~~~ssLiPwLknlss~~~ 145 (327)
++|.++.++||++|+ ++|++||+++|.+|+||||++.|.+.+. ++++|||||||+++.++
T Consensus 81 ~~g~s~~~sp~ss~~~~~~ss~~~sp~~s~~~s~~ss~~pSp~~~d~~~~~----~~~~~~p~~~~~~~~~s 148 (150)
T PF05687_consen 81 IVGSSASASPCSSYQLSPNSSAFPSPVPSYQPSPSSSSFPSPSSLDSINNS----SSSSLIPWLKNLSSGSS 148 (150)
T ss_pred ccccCCCCCCcCCCcCCccccCcCCcccccCCCcCCCCCCCCccccccccc----ccccccchhhccccCcC
Confidence 999999999999988 8999999999999999999999976542 45899999999987554
No 2
>PLN02905 beta-amylase
Probab=100.00 E-value=1.1e-35 Score=300.41 Aligned_cols=93 Identities=43% Similarity=0.586 Sum_probs=83.1
Q ss_pred CCCCCChhhhhhhHHHHHHHHHHHHHHHHhhhhhCCCCCCCcCChHHHHHHHHHHhCceEcCCCccccccCCCCcccccc
Q 020383 4 GTRMPTWKERDNNKRRERRRRAIAAKIYAGLRMYGNYRLPKHCDNNEVLKALCNEAGWTVEEDGTTYRKGCKPVEYMDVM 83 (327)
Q Consensus 4 ~~r~ptw~ErEnnk~RERrRRaIaakI~aGlr~~gny~lp~~~d~n~vl~al~~eagw~ve~dgttyr~g~kp~~~~~~~ 83 (327)
..|.|+||||||||+|||||||||+|||+|||+||||+||+|||+||||||||+||||+||+||||||+.++.+... .
T Consensus 78 ~~~~~~~~ere~~~~rer~rrai~~~i~~glr~~g~~~lp~~~d~n~v~~~l~~eag~~v~~dg~~y~~~~~~~~~~--~ 155 (702)
T PLN02905 78 SRRSRPLEEKERTKLRERHRRAITARILAGLRRHGNYNLRVRADINDVIAALAREAGWVVLPDGTTFPSRSQGTRPA--G 155 (702)
T ss_pred cCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCcccchHHHHHHHHHhcCcEEcCCCCcccccCCCCCCC--C
Confidence 37999999999999999999999999999999999999999999999999999999999999999999555433211 3
Q ss_pred CCCCCCCCCCccCCC
Q 020383 84 GGSASASACSSYQQS 98 (327)
Q Consensus 84 G~s~~~spcSS~~pS 98 (327)
|.|+.+.+|+|+|.-
T Consensus 156 ~~~~~~~~~~~~~~~ 170 (702)
T PLN02905 156 GTSAVAATSSSSHLV 170 (702)
T ss_pred Ccccccccccccccc
Confidence 777889999998863
No 3
>PLN02705 beta-amylase
Probab=100.00 E-value=9.9e-34 Score=285.55 Aligned_cols=88 Identities=47% Similarity=0.730 Sum_probs=78.9
Q ss_pred CCCCChhhhhhhHHHHHHHHHHHHHHHHhhhhhCCCCCCCcCChHHHHHHHHHHhCceEcCCCccccccCCCCccccccC
Q 020383 5 TRMPTWKERDNNKRRERRRRAIAAKIYAGLRMYGNYRLPKHCDNNEVLKALCNEAGWTVEEDGTTYRKGCKPVEYMDVMG 84 (327)
Q Consensus 5 ~r~ptw~ErEnnk~RERrRRaIaakI~aGlr~~gny~lp~~~d~n~vl~al~~eagw~ve~dgttyr~g~kp~~~~~~~G 84 (327)
+|.|+||||||||+|||||||||+|||+|||+||||+||+|||+||||||||+||||+||+|||||||+++|.+ +..++
T Consensus 77 ~~~~~~~e~e~~~~rer~rrai~~ki~aglr~~g~~~lp~~~d~n~vl~al~~eagw~v~~dg~~yr~~~~~~~-~~~~~ 155 (681)
T PLN02705 77 GKREREKEKERTKLRERHRRAITSRMLAGLRQYGNFPLPARADMNDVLAALAREAGWTVEADGTTYRQSPQPSH-VGSFP 155 (681)
T ss_pred CCCcchhhhhhhHHHHHHHHHHHHHHHHHHHhccCCCCCcccchHHHHHHHHHhcCcEEcCCCCcccCCCCCcc-ccccc
Confidence 67899999999999999999999999999999999999999999999999999999999999999999988764 66665
Q ss_pred CCCCCCCCC
Q 020383 85 GSASASACS 93 (327)
Q Consensus 85 ~s~~~spcS 93 (327)
--.--+|-+
T Consensus 156 ~~~~~~~~~ 164 (681)
T PLN02705 156 VRSVESPLS 164 (681)
T ss_pred ccCccCcch
Confidence 544445543
No 4
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=56.28 E-value=42 Score=23.69 Aligned_cols=45 Identities=22% Similarity=0.314 Sum_probs=31.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHhhhhhCCCC---CCCcCChHHHHHHHHH
Q 020383 13 RDNNKRRERRRRAIAAKIYAGLRMYGNYR---LPKHCDNNEVLKALCN 57 (327)
Q Consensus 13 rEnnk~RERrRRaIaakI~aGlr~~gny~---lp~~~d~n~vl~al~~ 57 (327)
|++...+||+||.=-..-|.-|+.+=-.. -..+-|..+||..-++
T Consensus 2 R~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~ 49 (55)
T PF00010_consen 2 RQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAID 49 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHH
Confidence 67778889988887777788888764442 2345677888876554
No 5
>PF14226 DIOX_N: non-haem dioxygenase in morphine synthesis N-terminal; PDB: 3OOX_A 1BK0_A 1IPS_B 1QIQ_A 1OC1_A 2Y86_A 2Y60_A 1W03_A 2VE1_A 1QJF_A ....
Probab=46.11 E-value=25 Score=27.35 Aligned_cols=39 Identities=18% Similarity=0.296 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHhhhhhCCCCCCCcCChHHHHHHHHHHh
Q 020383 21 RRRRAIAAKIYAGLRMYGNYRLPKHCDNNEVLKALCNEA 59 (327)
Q Consensus 21 RrRRaIaakI~aGlr~~gny~lp~~~d~n~vl~al~~ea 59 (327)
-.|.+++++|...++.+|-|.|=-|.-..++++.+.+.+
T Consensus 11 ~~~~~~~~~l~~A~~~~GFf~l~nhGi~~~l~~~~~~~~ 49 (116)
T PF14226_consen 11 ADREEVAEQLRDACEEWGFFYLVNHGIPQELIDRVFAAA 49 (116)
T ss_dssp HHHHHHHHHHHHHHHHTSEEEEESSSSSHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHhCCEEEEecccccchhhHHHHHHH
Confidence 467889999999999999999999988888777766554
No 6
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=45.14 E-value=19 Score=32.63 Aligned_cols=28 Identities=57% Similarity=0.831 Sum_probs=21.7
Q ss_pred CccCCCCCCCCCCCCCCCCCCCCCCCCC
Q 020383 93 SSYQQSPCASYNPSPGSSSFPSPRSSHY 120 (327)
Q Consensus 93 SS~~pSp~aSY~~SP~SSSFPSp~~s~~ 120 (327)
+|...+|+.+|++++.+++|+||..+-.
T Consensus 84 ~s~~~sp~ss~~~~~~ss~~~sp~~s~~ 111 (150)
T PF05687_consen 84 SSASASPCSSYQLSPNSSAFPSPVPSYQ 111 (150)
T ss_pred cCCCCCCcCCCcCCccccCcCCcccccC
Confidence 4566788889998888888888766543
No 7
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=44.99 E-value=45 Score=32.33 Aligned_cols=57 Identities=23% Similarity=0.172 Sum_probs=35.1
Q ss_pred CCCChhhhhhhHHHHHHHHHHHHHH-------HHhhhhhCCCCCCCcCChHHHHHHHHHHhCce
Q 020383 6 RMPTWKERDNNKRRERRRRAIAAKI-------YAGLRMYGNYRLPKHCDNNEVLKALCNEAGWT 62 (327)
Q Consensus 6 r~ptw~ErEnnk~RERrRRaIaakI-------~aGlr~~gny~lp~~~d~n~vl~al~~eagw~ 62 (327)
.-|+.|..|..+|+++|..|...-. ....+++.+-..+-..++.+.++.|++..|+-
T Consensus 82 ~~p~~K~~~~~~R~~~r~~a~~~~~~~~~~g~~~~a~~~~~r~~~~~~~~~~~~k~lL~~~Gip 145 (338)
T TIGR03674 82 KPPELKAETLEERREIREEAEEKWEEALEKGDLEEARKYAQRSSRLTSEIVESSKKLLDLMGIP 145 (338)
T ss_pred CChhhhHhhHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCCe
Confidence 4588999999999999877544321 11233333322222244777788888888854
No 8
>PF11914 DUF3432: Domain of unknown function (DUF3432); InterPro: IPR021839 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 100 amino acids in length. This domain is found associated with PF00096 from PFAM. This domain has two conserved sequence motifs: YPSPV and PSP.
Probab=44.62 E-value=48 Score=28.29 Aligned_cols=11 Identities=55% Similarity=0.718 Sum_probs=8.6
Q ss_pred CccccCCCCCC
Q 020383 161 SISAPVTPPLS 171 (327)
Q Consensus 161 S~SAPVTPPlS 171 (327)
+.|+||+-+|+
T Consensus 88 ~fsspvst~Ls 98 (99)
T PF11914_consen 88 SFSSPVSTGLS 98 (99)
T ss_pred cccccccccCC
Confidence 66888888775
No 9
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=41.23 E-value=4.3e+02 Score=31.57 Aligned_cols=12 Identities=25% Similarity=0.504 Sum_probs=6.0
Q ss_pred CcCChHHHHHHH
Q 020383 44 KHCDNNEVLKAL 55 (327)
Q Consensus 44 ~~~d~n~vl~al 55 (327)
.+|.-.|...-|
T Consensus 1371 mrcSfEetv~il 1382 (1605)
T KOG0260|consen 1371 MRCSFEETVDIL 1382 (1605)
T ss_pred ccccHHHHHHHH
Confidence 356555544443
No 10
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=40.25 E-value=16 Score=29.64 Aligned_cols=34 Identities=35% Similarity=0.532 Sum_probs=30.9
Q ss_pred CCCCCcCChHHHHHHHHHHhCceEcCCCcccccc
Q 020383 40 YRLPKHCDNNEVLKALCNEAGWTVEEDGTTYRKG 73 (327)
Q Consensus 40 y~lp~~~d~n~vl~al~~eagw~ve~dgttyr~g 73 (327)
|.||.++=+.+++++++...|=+++-|.+|....
T Consensus 110 ~glP~~~~~~~~~~~i~~~iG~~i~vD~~t~~~~ 143 (153)
T PF14111_consen 110 YGLPLHLWSEEILKAIGSKIGEPIEVDENTLKRT 143 (153)
T ss_pred ccCCHHHhhhHHHHHHHHhcCCeEEEEcCCCCcc
Confidence 4799999999999999999999999999988643
No 11
>PF00424 REV: REV protein (anti-repression trans-activator protein); InterPro: IPR000625 REV is a viral anti-repression trans-activator protein, which appears to act post-transcriptionally [] to relieve negative repression of GAG and ENV production. It is a phosphoprotein [, ] whose state of phosphorylation is mediated by a specific serine kinase activity present in the nucleus []. REV accumulates in the nucleoli [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 1ETF_B 1ETG_B 1ULL_B 3LPH_B 2X7L_R.
Probab=39.79 E-value=36 Score=28.57 Aligned_cols=26 Identities=38% Similarity=0.561 Sum_probs=17.1
Q ss_pred ChhhhhhhHHHHHHH----HHHHHHHHHhh
Q 020383 9 TWKERDNNKRRERRR----RAIAAKIYAGL 34 (327)
Q Consensus 9 tw~ErEnnk~RERrR----RaIaakI~aGl 34 (327)
|-+-|-|.+||-|+| ++|+.+||+-.
T Consensus 32 Tr~aRRnRRRRWR~rq~QI~~lseRIl~t~ 61 (91)
T PF00424_consen 32 TRQARRNRRRRWRARQRQIRALSERILSTC 61 (91)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred ccccccchhhhHHHHHHHHHHHHHHHHHhc
Confidence 345566666655544 68999999754
No 12
>PLN02409 serine--glyoxylate aminotransaminase
Probab=38.20 E-value=89 Score=29.92 Aligned_cols=35 Identities=20% Similarity=0.364 Sum_probs=25.5
Q ss_pred CCCCCcCChHHHHHHHHHHhCceEcC-----CCccccccC
Q 020383 40 YRLPKHCDNNEVLKALCNEAGWTVEE-----DGTTYRKGC 74 (327)
Q Consensus 40 y~lp~~~d~n~vl~al~~eagw~ve~-----dgttyr~g~ 74 (327)
+.+|+..|..+|.+.|.++.|.+|.. .|..+|-|+
T Consensus 311 ~~~p~~~~~~~l~~~l~~~~~i~i~~G~~~~~~~~~Rig~ 350 (401)
T PLN02409 311 VVVPEGIDSAEIVKNAWKKYNLSLGLGLNKVAGKVFRIGH 350 (401)
T ss_pred EeCCCCCCHHHHHHHHHHhCCEEEEcCCCcccCCEEEEcC
Confidence 34566667778999999998888873 466777664
No 13
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=37.25 E-value=29 Score=28.85 Aligned_cols=23 Identities=35% Similarity=0.747 Sum_probs=12.6
Q ss_pred HHHHHHHHHHhCceEcCCCcccc
Q 020383 49 NEVLKALCNEAGWTVEEDGTTYR 71 (327)
Q Consensus 49 n~vl~al~~eagw~ve~dgttyr 71 (327)
.+-|..+|.+.||+++.|+..+.
T Consensus 111 ~~el~~~~~~~gW~~d~~~~~~~ 133 (143)
T PF10075_consen 111 EEELEKFIKSRGWTVDGDGVLFP 133 (143)
T ss_dssp HHHHHHHHHHHT-EE-----EE-
T ss_pred HHHHHHHHHHcCCEECCCccEEe
Confidence 55666788888999999998887
No 14
>PRK07309 aromatic amino acid aminotransferase; Validated
Probab=36.69 E-value=73 Score=30.07 Aligned_cols=30 Identities=13% Similarity=0.340 Sum_probs=21.3
Q ss_pred CCCCcC--ChHHHHHHHHHHhCceEcCCCcccc
Q 020383 41 RLPKHC--DNNEVLKALCNEAGWTVEEDGTTYR 71 (327)
Q Consensus 41 ~lp~~~--d~n~vl~al~~eagw~ve~dgttyr 71 (327)
+||++. |..++.+.||+++|+.|- +|..|.
T Consensus 326 ~l~~~~~~~~~~~~~~l~~~~gv~v~-pg~~f~ 357 (391)
T PRK07309 326 KIPAGYNQDSFKFLQDFARKKAVAFI-PGAAFG 357 (391)
T ss_pred ECCCCCCCCHHHHHHHHHHhCCEEEe-CchhhC
Confidence 456553 456788899999999986 555553
No 15
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=36.45 E-value=4.4e+02 Score=31.51 Aligned_cols=28 Identities=14% Similarity=0.062 Sum_probs=13.8
Q ss_pred HHHHHhhhhhCCCCCCCcCChHHHHHHH
Q 020383 28 AKIYAGLRMYGNYRLPKHCDNNEVLKAL 55 (327)
Q Consensus 28 akI~aGlr~~gny~lp~~~d~n~vl~al 55 (327)
--|+.+.+.++.-..=+-|--|=.|-.|
T Consensus 1379 v~il~~aa~~~ekd~~rgvsEnImlgql 1406 (1605)
T KOG0260|consen 1379 VDILMDAAAHAEKDPCRGVSENIMLGQL 1406 (1605)
T ss_pred HHHHHHHHhhhccCCCccceeeeeeccc
Confidence 3466666666654433444444333333
No 16
>PRK08361 aspartate aminotransferase; Provisional
Probab=36.38 E-value=70 Score=30.02 Aligned_cols=57 Identities=16% Similarity=0.278 Sum_probs=33.9
Q ss_pred hhhHHHHHHHHHHHHHHHH---hhh---hhCCC----CCCC-cCChHHHHHHHHHHhCceEcCCCcccc
Q 020383 14 DNNKRRERRRRAIAAKIYA---GLR---MYGNY----RLPK-HCDNNEVLKALCNEAGWTVEEDGTTYR 71 (327)
Q Consensus 14 Ennk~RERrRRaIaakI~a---Glr---~~gny----~lp~-~~d~n~vl~al~~eagw~ve~dgttyr 71 (327)
++.+++-++||.+..+-+. |+. ..|+| +||. ..|..++.+.|.++.|..|. +|+.|.
T Consensus 292 ~~~~~~~~~~~~~~~~~L~~~~~~~~~~p~g~~~~~~~l~~~~~~~~~l~~~l~~~~gv~v~-pg~~f~ 359 (391)
T PRK08361 292 EEMRKEYNERRKLVLKRLKEMPHIKVFEPKGAFYVFANIDETGMSSEDFAEWLLEKARVVVI-PGTAFG 359 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCeecCCCEEEEEEEECCCCCCCHHHHHHHHHHhCCEEEc-CchhhC
Confidence 3444444455555444444 332 23443 4553 45778888888888999997 576664
No 17
>PRK07682 hypothetical protein; Validated
Probab=35.73 E-value=70 Score=29.70 Aligned_cols=25 Identities=20% Similarity=0.235 Sum_probs=19.6
Q ss_pred CChHHHHHHHHHHhCceEcCCCcccc
Q 020383 46 CDNNEVLKALCNEAGWTVEEDGTTYR 71 (327)
Q Consensus 46 ~d~n~vl~al~~eagw~ve~dgttyr 71 (327)
.|..++.+.|++++|..|.+ |..|.
T Consensus 321 ~~~~~~~~~ll~~~gv~v~p-g~~f~ 345 (378)
T PRK07682 321 LSSEEFAEQLLLEEKVAVVP-GSVFG 345 (378)
T ss_pred CCHHHHHHHHHHhCCEEEcC-chhhC
Confidence 46678888888899999876 77773
No 18
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=34.12 E-value=26 Score=38.41 Aligned_cols=44 Identities=32% Similarity=0.473 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHhhhhhCCCCCCC-----cCChHHHHHHHHHHhCceE
Q 020383 20 ERRRRAIAAKIYAGLRMYGNYRLPK-----HCDNNEVLKALCNEAGWTV 63 (327)
Q Consensus 20 ERrRRaIaakI~aGlr~~gny~lp~-----~~d~n~vl~al~~eagw~v 63 (327)
|-.|+.|-.+|..|||--|+|.+-+ +.=.+.=|+|||.|||.+-
T Consensus 363 e~aR~~IL~~~~~~lrl~g~~d~~qlA~lTPGfVGADL~AL~~~Aa~vA 411 (802)
T KOG0733|consen 363 ETAREEILRIICRGLRLSGDFDFKQLAKLTPGFVGADLMALCREAAFVA 411 (802)
T ss_pred hHHHHHHHHHHHhhCCCCCCcCHHHHHhcCCCccchhHHHHHHHHHHHH
Confidence 4457789999999999999998663 4445677999999999763
No 19
>PRK12454 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed
Probab=33.10 E-value=35 Score=33.49 Aligned_cols=35 Identities=31% Similarity=0.621 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHhCceEcCC-CccccccCCCCccccc
Q 020383 48 NNEVLKALCNEAGWTVEED-GTTYRKGCKPVEYMDV 82 (327)
Q Consensus 48 ~n~vl~al~~eagw~ve~d-gttyr~g~kp~~~~~~ 82 (327)
..|-.++|.+|.||++-+| |.-||.-..-|...++
T Consensus 137 ~~~~a~~~~~~~g~~~~~d~g~g~RrvV~SP~P~~i 172 (313)
T PRK12454 137 DEEEAKKLAKEKGWIVKEDAGRGWRRVVPSPDPLGI 172 (313)
T ss_pred CHHHHHHHHHHcCCEEEEcCCCceEEEeCCCCCccc
Confidence 3566788999999999999 9999976554443333
No 20
>PRK05957 aspartate aminotransferase; Provisional
Probab=30.90 E-value=80 Score=29.77 Aligned_cols=28 Identities=29% Similarity=0.357 Sum_probs=21.3
Q ss_pred CCCcCChHHHHHHHHHHhCceEcCCCccc
Q 020383 42 LPKHCDNNEVLKALCNEAGWTVEEDGTTY 70 (327)
Q Consensus 42 lp~~~d~n~vl~al~~eagw~ve~dgtty 70 (327)
+|...|..|+.+.|+++.|+.|.+ |+.|
T Consensus 325 ~~~~~~~~~~~~~l~~~~gv~v~p-g~~f 352 (389)
T PRK05957 325 VNTDLNDFELVKQLIREYRVAVIP-GTTF 352 (389)
T ss_pred CCCCCChHHHHHHHHHHCCEEEcc-chhh
Confidence 444566778999999999999886 6655
No 21
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=30.89 E-value=81 Score=21.95 Aligned_cols=47 Identities=26% Similarity=0.302 Sum_probs=30.9
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHhhhhhCCCC-CCCcCChHHHHHHHH
Q 020383 10 WKERDNNKRRERRRRAIAAKIYAGLRMYGNYR-LPKHCDNNEVLKALC 56 (327)
Q Consensus 10 w~ErEnnk~RERrRRaIaakI~aGlr~~gny~-lp~~~d~n~vl~al~ 56 (327)
...|+....+||+||.=-...|.-|+..=-.. .-++.|--+||..-+
T Consensus 2 ~~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~ 49 (60)
T cd00083 2 KSRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAV 49 (60)
T ss_pred cHHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHH
Confidence 35677788899999988888888888752211 124556666665433
No 22
>PRK05942 aspartate aminotransferase; Provisional
Probab=28.63 E-value=1.2e+02 Score=28.68 Aligned_cols=30 Identities=13% Similarity=0.261 Sum_probs=23.3
Q ss_pred CCCCcCChHHHHHHHHHHhCceEcCCCcccc
Q 020383 41 RLPKHCDNNEVLKALCNEAGWTVEEDGTTYR 71 (327)
Q Consensus 41 ~lp~~~d~n~vl~al~~eagw~ve~dgttyr 71 (327)
++|...|..+++..|+++.|..|-+ |+.|.
T Consensus 332 ~~~~~~~~~~~~~~~l~~~gV~v~~-g~~f~ 361 (394)
T PRK05942 332 PCPVGMGSTDFALNVLQKTGVVVTP-GNAFG 361 (394)
T ss_pred ECCCCCCHHHHHHHHHHHCCEEEeC-ChhhC
Confidence 4676667788888899999998864 67774
No 23
>cd08517 PBP2_NikA_DppA_OppA_like_13 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=28.28 E-value=77 Score=30.14 Aligned_cols=20 Identities=35% Similarity=0.466 Sum_probs=15.6
Q ss_pred HHHHHHHHHHhCceEcCCCc
Q 020383 49 NEVLKALCNEAGWTVEEDGT 68 (327)
Q Consensus 49 n~vl~al~~eagw~ve~dgt 68 (327)
-|--|+|.+||||..+.||+
T Consensus 313 ~~~A~~lL~~aG~~~~~~G~ 332 (480)
T cd08517 313 VAKAEALLDEAGYPRGADGI 332 (480)
T ss_pred HHHHHHHHHHcCCCcCCCCc
Confidence 35677899999998777775
No 24
>PRK09276 LL-diaminopimelate aminotransferase; Provisional
Probab=27.91 E-value=1.5e+02 Score=27.63 Aligned_cols=28 Identities=29% Similarity=0.464 Sum_probs=21.4
Q ss_pred CCCcCChHHHHHHHHHHhCceEcCCCccc
Q 020383 42 LPKHCDNNEVLKALCNEAGWTVEEDGTTY 70 (327)
Q Consensus 42 lp~~~d~n~vl~al~~eagw~ve~dgtty 70 (327)
||...|..++.++|+++.|..|-+ |+.|
T Consensus 329 ~~~~~~~~~l~~~ll~~~gi~v~~-g~~f 356 (385)
T PRK09276 329 VPKGYTSAEFATLLLDKAGVVVTP-GNGF 356 (385)
T ss_pred CCCCCCHHHHHHHHHHhCCEEECC-chhh
Confidence 455667888999999999998864 5555
No 25
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=27.63 E-value=1.1e+02 Score=22.95 Aligned_cols=50 Identities=28% Similarity=0.395 Sum_probs=32.0
Q ss_pred HHHHHHHHHhhhhhCC--C---------CCCCcCChHHHHHHHHHHhCceEcCCC--ccccccCC
Q 020383 24 RAIAAKIYAGLRMYGN--Y---------RLPKHCDNNEVLKALCNEAGWTVEEDG--TTYRKGCK 75 (327)
Q Consensus 24 RaIaakI~aGlr~~gn--y---------~lp~~~d~n~vl~al~~eagw~ve~dg--ttyr~g~k 75 (327)
.....+|+.-|+..|. + .|++. ..|-+|..| .+.|+|+-..+ .+|+.+++
T Consensus 5 ~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~-~v~r~L~~L-~~~G~V~~~~~~~~~W~i~~~ 67 (68)
T smart00550 5 DSLEEKILEFLENSGDETSTALQLAKNLGLPKK-EVNRVLYSL-EKKGKVCKQGGTPPLWKLTDK 67 (68)
T ss_pred hHHHHHHHHHHHHCCCCCcCHHHHHHHHCCCHH-HHHHHHHHH-HHCCCEEecCCCCCceEeecC
Confidence 3456788889999887 4 34444 455566555 56699876542 46776654
No 26
>COG1487 VapC Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=27.59 E-value=1.2e+02 Score=24.57 Aligned_cols=41 Identities=27% Similarity=0.178 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhhhhhCCCCCCCcCChHHHHHHHHHHhCceEcCCC
Q 020383 23 RRAIAAKIYAGLRMYGNYRLPKHCDNNEVLKALCNEAGWTVEEDG 67 (327)
Q Consensus 23 RRaIaakI~aGlr~~gny~lp~~~d~n~vl~al~~eagw~ve~dg 67 (327)
-..++++|++.|++.|. ...++.-++.|.|...|..+--..
T Consensus 75 ~a~~~~~i~~~l~~~G~----~~~~~D~lIAa~A~~~~~~LvT~d 115 (133)
T COG1487 75 AAEIAAEIQARLRKEGI----PIGLNDLLIAATAIAHGLLLVTRD 115 (133)
T ss_pred HHHHHHHHHHHHHhcCC----CCChHHHHHHHHHHHcCCEEEEcC
Confidence 34568999999999998 233444556888888887654444
No 27
>PRK08363 alanine aminotransferase; Validated
Probab=27.53 E-value=98 Score=29.14 Aligned_cols=24 Identities=21% Similarity=0.317 Sum_probs=18.1
Q ss_pred ChHHHHHHHHHHhCceEcCCCcccc
Q 020383 47 DNNEVLKALCNEAGWTVEEDGTTYR 71 (327)
Q Consensus 47 d~n~vl~al~~eagw~ve~dgttyr 71 (327)
|..++++.++.++|..|- +|+.|.
T Consensus 340 ~~~~~~~~~l~~~gV~v~-~g~~f~ 363 (398)
T PRK08363 340 DDKEFVLDVLHEAHVLFV-HGSGFG 363 (398)
T ss_pred CHHHHHHHHHHhCCEEEe-CchhhC
Confidence 456777888899998875 477774
No 28
>TIGR01365 serC_2 phosphoserine aminotransferase, Methanosarcina type. This model represents a variant form of the serine biosynthesis enzyme phosphoserine aminotransferase, as found in a small number of distantly related species, including Caulobacter crescentus, Mesorhizobium loti, and the archaeon Methanosarcina barkeri.
Probab=26.70 E-value=2e+02 Score=28.42 Aligned_cols=60 Identities=17% Similarity=0.094 Sum_probs=40.0
Q ss_pred hhHHHHHHHHHHHHHHHHhhhhhC-CCCCCC------------c-----C-----C-----hHHHHHHHHHHhCceEc--
Q 020383 15 NNKRRERRRRAIAAKIYAGLRMYG-NYRLPK------------H-----C-----D-----NNEVLKALCNEAGWTVE-- 64 (327)
Q Consensus 15 nnk~RERrRRaIaakI~aGlr~~g-ny~lp~------------~-----~-----d-----~n~vl~al~~eagw~ve-- 64 (327)
--..|.+|-++.|..++++|.++| -+-+++ . - | .+++.+ ++++.|.++.
T Consensus 260 Gle~~~~Rh~~~a~~l~~~l~~lg~l~~~~~~~~~rS~tvt~v~~~~~~~~~~~~~~~~~~~~~~~~-~l~~~gi~i~~G 338 (374)
T TIGR01365 260 GLKPLIARADDNLAVLEAFVAKNNWIHFLAETPEIRSNTSVCLKVVDPAIDALDEDAQADFAKELIS-TLEKEGVAYDIG 338 (374)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHCCCcccCCCChhhcCCCeEEEEeCCccccccccchhhHHHHHHHH-HHHHCCEEEecc
Confidence 356778888899999999999999 444431 0 1 1 244444 4556698776
Q ss_pred ---CCCccccccCC
Q 020383 65 ---EDGTTYRKGCK 75 (327)
Q Consensus 65 ---~dgttyr~g~k 75 (327)
.-|++||-||-
T Consensus 339 ~~~~~~~~fRIg~~ 352 (374)
T TIGR01365 339 SYRDAPSGLRIWCG 352 (374)
T ss_pred ccccCCCceEEecC
Confidence 23578887764
No 29
>cd06451 AGAT_like Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-glyoxylate aminotransferase (SGAT), and 3-hydroxykynurenine transaminase (HKT). AGAT is a homodimeric protein, which catalyses the transamination of glyoxylate to glycine, and SGAT converts serine and glyoxylate to hydroxypyruvate and glycine. HKT catalyzes the PLP-dependent transamination of 3-hydroxykynurenine, a potentially toxic metabolite of the kynurenine pathway.
Probab=26.45 E-value=1.8e+02 Score=26.53 Aligned_cols=45 Identities=27% Similarity=0.485 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHhhhhhCCCC----------------CCCcCChHHHHHHHHHHhCceEc
Q 020383 19 RERRRRAIAAKIYAGLRMYGNYR----------------LPKHCDNNEVLKALCNEAGWTVE 64 (327)
Q Consensus 19 RERrRRaIaakI~aGlr~~gny~----------------lp~~~d~n~vl~al~~eagw~ve 64 (327)
..++.+..+.++..+|+..| +. +|...+-.++.++|.++.|+.|-
T Consensus 260 ~~~~~~~~~~~l~~~L~~~g-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~gI~~~ 320 (356)
T cd06451 260 RWARHRRLAKALREGLEALG-LKLLAKPELRSPTVTAVLVPEGVDGDEVVRRLMKRYNIEIA 320 (356)
T ss_pred HHHHHHHHHHHHHHHHHHcC-CeeccCcccCCCceEEEECCCCCCHHHHHHHHHHhCCEEEe
Confidence 34444566666667776543 22 23333456788888776698774
No 30
>cd08513 PBP2_thermophilic_Hb8_like The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold. This family includes the substrate-binding domain of an ABC-type oligopeptide-binding protein Hb8 from Thermus thermophilius and its closest homologs from other bacteria. The structural topology of this substrate-binding domain is similar to those of DppA from Escherichia coli and OppA from Salmonella typhimurium, and thus belongs to the type 2 periplasmic binding fold protein (PBP2) superfamily. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. The type 2 periplasmic binding proteins are soluble ligand-binding components of ABC or tripartite ATP-independent transporter
Probab=25.59 E-value=1e+02 Score=29.48 Aligned_cols=21 Identities=43% Similarity=0.692 Sum_probs=15.8
Q ss_pred HHHHHHHHHhCceEcCCCccc
Q 020383 50 EVLKALCNEAGWTVEEDGTTY 70 (327)
Q Consensus 50 ~vl~al~~eagw~ve~dgtty 70 (327)
|--|+|.+||||..+.||..+
T Consensus 310 ~kAk~lL~eaG~~~~~~g~~~ 330 (482)
T cd08513 310 EKAKQLLDEAGWKLGPDGGIR 330 (482)
T ss_pred HHHHHHHHHcCCccCCCCcEE
Confidence 456789999999877776433
No 31
>PRK12354 carbamate kinase; Reviewed
Probab=24.24 E-value=62 Score=31.74 Aligned_cols=30 Identities=27% Similarity=0.575 Sum_probs=23.8
Q ss_pred hHHHHHHHHHHhCceEcCCCccccccCCCC
Q 020383 48 NNEVLKALCNEAGWTVEEDGTTYRKGCKPV 77 (327)
Q Consensus 48 ~n~vl~al~~eagw~ve~dgttyr~g~kp~ 77 (327)
..|-.++|.+|.||++.+||.-||+-..-|
T Consensus 128 ~~~~a~~~~~e~g~~~~~dg~g~rrVv~SP 157 (307)
T PRK12354 128 DEAEAERLAAEKGWTIKPDGDYFRRVVPSP 157 (307)
T ss_pred CHHHHHHHHHhcCCEEeecCCceEEEecCC
Confidence 345667899999999999999999765333
No 32
>PRK07683 aminotransferase A; Validated
Probab=23.69 E-value=1.6e+02 Score=27.74 Aligned_cols=55 Identities=18% Similarity=0.328 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHHHHHHhh--hh---hCC-CC---CCC-cCChHHHHHHHHHHhCceEcCCCcccc
Q 020383 16 NKRRERRRRAIAAKIYAGL--RM---YGN-YR---LPK-HCDNNEVLKALCNEAGWTVEEDGTTYR 71 (327)
Q Consensus 16 nk~RERrRRaIaakI~aGl--r~---~gn-y~---lp~-~~d~n~vl~al~~eagw~ve~dgttyr 71 (327)
.+++-++||+++.+++..+ .. .|+ |- +|. ..+..++.+.|++++|..|-+ |..|.
T Consensus 288 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~gI~v~p-g~~f~ 352 (387)
T PRK07683 288 MRHQYKKRRDYVYNRLISMGLDVEKPTGAFYLFPSIGHFTMSSFDFALDLVEEAGLAVVP-GSAFS 352 (387)
T ss_pred HHHHHHHHHHHHHHHHHHcCCcccCCCeeEEEEEecccCCCCHHHHHHHHHHhCCEEEcC-chhhC
Confidence 3444456667777777643 21 122 22 232 345667888899999998875 66664
No 33
>PRK12495 hypothetical protein; Provisional
Probab=23.68 E-value=1e+02 Score=29.65 Aligned_cols=55 Identities=27% Similarity=0.474 Sum_probs=34.7
Q ss_pred hhhhhhhHHHHH-----HHHHHHHHHHHhhhhhCCCCCCCcCC-hHHHHHHHHHHhCceEcCCCccccccCC
Q 020383 10 WKERDNNKRRER-----RRRAIAAKIYAGLRMYGNYRLPKHCD-NNEVLKALCNEAGWTVEEDGTTYRKGCK 75 (327)
Q Consensus 10 w~ErEnnk~RER-----rRRaIaakI~aGlr~~gny~lp~~~d-~n~vl~al~~eagw~ve~dgttyr~g~k 75 (327)
.||.|+.|+||. .+|. +.|+.+-|-..|.--|.+||. =+.-|= ..+|.+|=..|.
T Consensus 5 DkEaEREkLREKye~d~~~R~-~~~~ma~lL~~gatmsa~hC~~CG~PIp----------a~pG~~~Cp~CQ 65 (226)
T PRK12495 5 DKEAEREKLREKYEQDEQKRE-ATERMSELLLQGATMTNAHCDECGDPIF----------RHDGQEFCPTCQ 65 (226)
T ss_pred hHHHHHHHHHHHHhhhHHHHH-HHHHHHHHHHhhcccchhhcccccCccc----------CCCCeeECCCCC
Confidence 488899999985 3333 446666777777788888883 232222 336666655554
No 34
>TIGR03538 DapC_gpp succinyldiaminopimelate transaminase. This family of succinyldiaminopimelate transaminases (DapC) includes the experimentally characterized enzyme from Bordatella pertussis. The majority of genes in this family are proximal to genes encoding components of the lysine biosynthesis via diaminopimelate pathway (GenProp0125).
Probab=23.68 E-value=1.1e+02 Score=28.76 Aligned_cols=24 Identities=29% Similarity=0.310 Sum_probs=18.6
Q ss_pred CChHHHHHHHHHHhCceEcCCCccc
Q 020383 46 CDNNEVLKALCNEAGWTVEEDGTTY 70 (327)
Q Consensus 46 ~d~n~vl~al~~eagw~ve~dgtty 70 (327)
.|..++.++|++++|..|- +|+.|
T Consensus 334 ~~~~~~~~~l~~~~gV~v~-pg~~f 357 (393)
T TIGR03538 334 GDDEAFARALYEEENVTVL-PGRFL 357 (393)
T ss_pred CCHHHHHHHHHHHCCEEEe-CCccc
Confidence 3678888899999999887 44455
No 35
>cd06453 SufS_like Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L-selenocystine to produce L-alanine; and selenocysteine lyase catalyzes the decomposition of L-selenocysteine.
Probab=23.61 E-value=1.6e+02 Score=26.94 Aligned_cols=45 Identities=16% Similarity=0.138 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHhhhhhCCCCCC--------------CcCChHHHHHHHHHHhCceEcCC
Q 020383 21 RRRRAIAAKIYAGLRMYGNYRLP--------------KHCDNNEVLKALCNEAGWTVEED 66 (327)
Q Consensus 21 RrRRaIaakI~aGlr~~gny~lp--------------~~~d~n~vl~al~~eagw~ve~d 66 (327)
.+.++++..+.++|+.++.+.+. +..+.+++.+.|. +.|+.|...
T Consensus 278 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~-~~gi~i~~g 336 (373)
T cd06453 278 AHEHELTAYALERLSEIPGVRVYGDAEDRAGVVSFNLEGIHPHDVATILD-QYGIAVRAG 336 (373)
T ss_pred HHHHHHHHHHHHHHhcCCCeEEeCCccccCCeEEEEECCcCHHHHHHHHH-HCCEEeccC
Confidence 34456777888888887655442 1125577777775 479988643
No 36
>cd08497 PBP2_NikA_DppA_OppA_like_14 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=22.86 E-value=1e+02 Score=30.00 Aligned_cols=25 Identities=32% Similarity=0.372 Sum_probs=17.6
Q ss_pred hHHHHHHHHHHhCceEcCCCccccc
Q 020383 48 NNEVLKALCNEAGWTVEEDGTTYRK 72 (327)
Q Consensus 48 ~n~vl~al~~eagw~ve~dgttyr~ 72 (327)
+-|--|+|.+||||..+.|+-.+.+
T Consensus 319 d~~kAk~lL~~aG~~~~~g~~~~~~ 343 (491)
T cd08497 319 NLRKALELLAEAGWTVRGGDILVNA 343 (491)
T ss_pred CHHHHHHHHHHcCCccCCCCEEECC
Confidence 5567788999999988655424433
No 37
>PRK07908 hypothetical protein; Provisional
Probab=22.81 E-value=2e+02 Score=26.57 Aligned_cols=55 Identities=22% Similarity=0.284 Sum_probs=28.2
Q ss_pred hhhHHHHHHHHHHHHHHHHhh--h----hhCCCCCCCcCChHHHHHHHHHHhCceEcCCCccc
Q 020383 14 DNNKRRERRRRAIAAKIYAGL--R----MYGNYRLPKHCDNNEVLKALCNEAGWTVEEDGTTY 70 (327)
Q Consensus 14 Ennk~RERrRRaIaakI~aGl--r----~~gny~lp~~~d~n~vl~al~~eagw~ve~dgtty 70 (327)
++.+++.++||....+.+..+ + ..|+|-+-+ .+..+.+..++++.|..|. +|+.|
T Consensus 256 ~~~~~~~~~~r~~l~~~L~~~~~~~~~p~~g~~~~~~-~~~~~~~~~~l~~~gI~v~-~g~~f 316 (349)
T PRK07908 256 AADAARLAADRAEMVAGLRAVGARVVDPAAAPFVLVR-VPDAELLRKRLRERGIAVR-RGDTF 316 (349)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCcEeccCCCceEEEEE-CCcHHHHHHHHHhCCEEEE-ECCCC
Confidence 344455555555555555432 2 123331111 1224566667789998886 55555
No 38
>cd08509 PBP2_TmCBP_oligosaccharides_like The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold. This family represents the substrate-binding domain of a cellulose-binding protein from the hyperthermophilic bacterium Thermotoga maritima (TmCBP) and its closest related proteins. TmCBP binds a variety of lengths of beta-1,4-linked glucose oligomers, ranging from two sugar rings (cellobiose) to five (cellopentose). TmCBP is structurally homologous to domains I and III of the ATP-binding cassette (ABC)-type oligopeptide-binding proteins and thus belongs to the type 2 periplasmic binding fold protein (PBP2) superfamily. The type 2 periplasmic binding proteins are soluble ligand-binding components of ABC or tripartite ATP-independent transporters and chemotaxis systems. Members of the PBP2 superfamily function in uptake of a variety of metabolites in bacteria such as amino acids, carbohydrate, ions, and polyamines. L
Probab=22.81 E-value=1.2e+02 Score=29.64 Aligned_cols=23 Identities=30% Similarity=0.518 Sum_probs=17.7
Q ss_pred HHHHHHHHHHhCceEcCCCcccc
Q 020383 49 NEVLKALCNEAGWTVEEDGTTYR 71 (327)
Q Consensus 49 n~vl~al~~eagw~ve~dgttyr 71 (327)
-|--|+|.+||||.++.||.-|.
T Consensus 324 ~~~A~~lL~~aG~~~~~~G~~~~ 346 (509)
T cd08509 324 PDKAKKLLESAGFKKDKDGKWYT 346 (509)
T ss_pred HHHHHHHHHHcCCeECCCCeEEC
Confidence 34556888999999988886554
No 39
>TIGR03537 DapC succinyldiaminopimelate transaminase. Note: the detailed information included in the EC:2.6.1.17 record includes the assertions that the enzyme uses the pyridoxal pyrophosphate cofactor, which is consistent with the pfam00155 family, and the assertion that the amino group donor is L-glutamate, which is undetermined for the sequences in this clade.
Probab=22.75 E-value=1.6e+02 Score=27.18 Aligned_cols=29 Identities=21% Similarity=0.398 Sum_probs=20.2
Q ss_pred CCCCcCChHHHHHHHHHHhCceEcCCCcccc
Q 020383 41 RLPKHCDNNEVLKALCNEAGWTVEEDGTTYR 71 (327)
Q Consensus 41 ~lp~~~d~n~vl~al~~eagw~ve~dgttyr 71 (327)
++|...+..++.++|++ +|..|-+ |+.|.
T Consensus 294 ~~~~~~~~~~l~~~L~~-~gv~v~~-g~~f~ 322 (350)
T TIGR03537 294 KVPSGIDAKDYALRLLE-NGIVVAP-GENFG 322 (350)
T ss_pred ECCCCCCHHHHHHHHHH-CCEEEcC-chhhC
Confidence 45665566778888765 7987764 77774
No 40
>PRK07392 threonine-phosphate decarboxylase; Validated
Probab=21.57 E-value=1.4e+02 Score=27.78 Aligned_cols=24 Identities=8% Similarity=0.148 Sum_probs=19.0
Q ss_pred ChHHHHHHHHHHhCceEcCCCcccc
Q 020383 47 DNNEVLKALCNEAGWTVEEDGTTYR 71 (327)
Q Consensus 47 d~n~vl~al~~eagw~ve~dgttyr 71 (327)
|..++.+.|.+++|+.|- +|+.|.
T Consensus 306 ~~~~l~~~ll~~~gv~v~-pg~~f~ 329 (360)
T PRK07392 306 SALQLQEKLLQQHRILIR-DCLSFP 329 (360)
T ss_pred CHHHHHHHHHhhCCEEEE-eCCCCC
Confidence 567788888889999987 777774
No 41
>PRK06108 aspartate aminotransferase; Provisional
Probab=21.52 E-value=1.9e+02 Score=26.61 Aligned_cols=29 Identities=34% Similarity=0.578 Sum_probs=22.1
Q ss_pred CCCCcCChHHHHHHHHHHhCceEcCCCccc
Q 020383 41 RLPKHCDNNEVLKALCNEAGWTVEEDGTTY 70 (327)
Q Consensus 41 ~lp~~~d~n~vl~al~~eagw~ve~dgtty 70 (327)
+||...|..++.+.|.++.|..|- .|+.|
T Consensus 322 ~l~~~~~~~~~~~~ll~~~gV~v~-pg~~f 350 (382)
T PRK06108 322 RIPGVTDSLALAKRLVDEAGLGLA-PGTAF 350 (382)
T ss_pred eCCCCCCHHHHHHHHHHhCCEEEe-Cchhh
Confidence 556556778899999999999885 46666
No 42
>PRK12686 carbamate kinase; Reviewed
Probab=20.44 E-value=88 Score=30.70 Aligned_cols=33 Identities=27% Similarity=0.393 Sum_probs=23.4
Q ss_pred HHHHHHHHHhCceEcCC-CccccccCCCCccccc
Q 020383 50 EVLKALCNEAGWTVEED-GTTYRKGCKPVEYMDV 82 (327)
Q Consensus 50 ~vl~al~~eagw~ve~d-gttyr~g~kp~~~~~~ 82 (327)
|--+.|++|.||++.+| |.=||.-...|+..++
T Consensus 137 ~~a~~~~~~~g~~~~~d~~~G~rrvV~sP~P~~i 170 (312)
T PRK12686 137 EEAKQQAEQPGSTFKEDAGRGYRRVVPSPKPQEI 170 (312)
T ss_pred HHHHHHHHHcCCcccccCCCCeEEeeCCCCCccc
Confidence 44455999999999999 8889966544433333
No 43
>PRK09411 carbamate kinase; Reviewed
Probab=20.33 E-value=87 Score=30.75 Aligned_cols=28 Identities=29% Similarity=0.453 Sum_probs=21.8
Q ss_pred HHHHHHHHHhCceEcCCCccccccCCCC
Q 020383 50 EVLKALCNEAGWTVEEDGTTYRKGCKPV 77 (327)
Q Consensus 50 ~vl~al~~eagw~ve~dgttyr~g~kp~ 77 (327)
|=.++|..|.||++-+||.-||+-..-|
T Consensus 131 e~a~~l~~e~g~~~~~dg~g~rrVVpSP 158 (297)
T PRK09411 131 EEQEALEAAYGWQMKRDGKYLRRVVASP 158 (297)
T ss_pred HHHHHHHHhcCCEEEecCCceEEEccCC
Confidence 5566777899999989999999764434
No 44
>COG4702 Uncharacterized conserved protein [Function unknown]
Probab=20.05 E-value=74 Score=29.43 Aligned_cols=23 Identities=35% Similarity=0.572 Sum_probs=19.8
Q ss_pred CCCCcCChHHHHHHHHHHhCceE
Q 020383 41 RLPKHCDNNEVLKALCNEAGWTV 63 (327)
Q Consensus 41 ~lp~~~d~n~vl~al~~eagw~v 63 (327)
-||++-|.|-|+++||+-+|--.
T Consensus 139 GlpqreDHnlvv~aL~~~lg~~~ 161 (168)
T COG4702 139 GLPQREDHNLVVRALADHLGIDL 161 (168)
T ss_pred CCCcccchhHHHHHHHHHhCCCh
Confidence 37899999999999999988543
Done!